Merge branch 'master' of gitlab_lbmc:pipelines/nextflow

src/docker_modules/MultiQC/1.0/Dockerfile

-FROM ubuntu:18.04
+FROM debian:stretch
 MAINTAINER Laurent Modolo
 
 ENV MULTIQC_VERSION=1.0
-ENV PACKAGES build-essential=12.4* \
-             python3-pip=9.0.1* \
-             python3-setuptools=39.0.1* \
-             python3-dev=3.6.5* \
-             python3-wheel=0.30.0* \
+ENV PACKAGES build-essential \
+             python3-pip \
+             python3-setuptools \
+             python3-dev \
+             python3-wheel \
+             procps \
              locales
 
 RUN apt-get update && \

src/docker_modules/deepTools/3.0.2/Dockerfile

-FROM ubuntu:18.04
+FROM debian:stretch
 MAINTAINER Laurent Modolo
 
 ENV DEEPTOOLS_VERSION=3.0.2
-ENV PACKAGES build-essential=12.4* \
-             python3-pip=9.0.1* \
-             python3-setuptools=39.0.1* \
-             python3-dev=3.6.5* \
-             python3-wheel=0.30.0* \
-             zlib1g-dev=1:1.2.11* \
-             libcurl4-gnutls-dev=7.58.0*
+ENV PACKAGES build-essential \
+             python3-pip \
+             python3-setuptools \
+             python3-dev \
+             python3-wheel \
+             zlib1g-dev \
+             libcurl4-gnutls-dev
 
 RUN apt-get update && \
     apt-get install -y --no-install-recommends ${PACKAGES} && \

src/docker_modules/deepTools/3.1.1/Dockerfile

+FROM debian:stretch
+MAINTAINER Laurent Modolo
+
+ENV DEEPTOOLS_VERSION=3.1.1
+ENV PACKAGES build-essential \
+             python3-pip \
+             python3-setuptools \
+             python3-dev \
+             python3-wheel \
+             zlib1g-dev \
+             libcurl4-gnutls-dev \
+             procps
+
+
+RUN apt-get update && \
+    apt-get install -y --no-install-recommends ${PACKAGES} && \
+    apt-get clean
+
+RUN pip3 install deeptools==${DEEPTOOLS_VERSION}

src/docker_modules/deepTools/3.1.1/docker_init.sh

+#!/bin/sh
+docker build src/docker_modules/deepTools/3.1.1 -t 'deeptools:3.1.1'

src/docker_modules/ucsc/375/Dockerfile

+FROM debian:jessie
+MAINTAINER Laurent Modolo
+
+ENV PACKAGES apt-utils \
+             curl \
+             build-essential \
+             libssl-dev \
+             libpng-dev \
+             uuid-dev \
+             libmysqlclient-dev \
+             rsync
+
+
+RUN apt-get update && \
+    apt-get install -y ${PACKAGES}
+
+ENV UCSC_VERSION=375
+
+RUN curl -k -L http://hgdownload.soe.ucsc.edu/admin/exe/userApps.v${UCSC_VERSION}.src.tgz -o userApps.v${UCSC_VERSION}.src.tgz &&\
+tar xvf userApps.v${UCSC_VERSION}.src.tgz &&\
+cd userApps/ && \
+make &&\
+mv userApps/bin/* /usr/bin/ &&\
+rm -R userApps.v${UCSC_VERSION}.src.tgz &&\
+rm -R userApps

src/docker_modules/ucsc/375/docker_init.sh

+#!/bin/sh
+docker build src/docker_modules/ucsc/375/ -t 'ucsc:375'